NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0132257_100235863

Scaffold Ga0132257_100235863


Overview

Basic Information
Taxon OID3300015373 Open in IMG/M
Scaffold IDGa0132257_100235863 Open in IMG/M
Source Dataset NameCombined assembly of cpr5 rhizosphere
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2180
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Arabidopsis Rhizosphere → Arabidopsis Rhizosphere Microbial Communities From The University Of North Carolina

Source Dataset Sampling Location
Location NameUniversity of North Carolina
CoordinatesLat. (o)35.9Long. (o)-79.05Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F017384Metagenome / Metatranscriptome241Y
F054170Metagenome140Y
F102897Metagenome / Metatranscriptome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0132257_1002358633F102897AGGMDLGVWREITDVYGGKVTRASYRLFDRTVTVRTSFGSKAAQIGGHTPDRLARSLLRKLVNERT*
Ga0132257_1002358634F017384GGAGGMGLEVWRAITADYNGRTVKGSFKFIDGVVNVRTPRGSRTMQSSGHTPEQMARQLLRELAREQKI*
Ga0132257_1002358638F054170GAGLRGWCGKLKGNTVMNVTIDREEADEVLSRDVSDEALEIAGSAEIAGGYTLQFCTS

 ⦗Top⦘



© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.